Sodium in PDB 6syr: The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate

Protein crystallography data

The structure of The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate, PDB code: 6syr was solved by S.Mazurkewich, J.C.Navarro Poulsen, J.Larsbrink, L.Lo Leggio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.69 / 1.49
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 43.215, 44.189, 50.172, 75.78, 65.43, 70.85
R / Rfree (%) 18.3 / 22.3

Other elements in 6syr:

The structure of The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate (pdb code 6syr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate, PDB code: 6syr:

Sodium binding site 1 out of 1 in 6syr

Go back to Sodium Binding Sites List in 6syr
Sodium binding site 1 out of 1 in the The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na507

b:37.5
occ:1.00
O A:HOH750 2.3 37.7 1.0
O A:LEU250 2.5 26.2 1.0
O A:HOH778 2.5 51.1 1.0
O A:ASP253 2.5 30.3 1.0
O A:VAL256 2.6 31.6 1.0
HG23 A:VAL256 3.1 38.7 1.0
HA A:GLU251 3.3 32.1 1.0
H A:ALA258 3.4 32.6 1.0
O A:GLU251 3.4 34.4 1.0
H A:ASP253 3.5 31.2 1.0
C A:ASP253 3.5 28.3 1.0
C A:GLU251 3.6 27.6 1.0
C A:LEU250 3.6 26.5 1.0
HB1 A:ALA258 3.6 37.4 1.0
C A:VAL256 3.7 25.2 1.0
N A:ASP253 3.8 26.0 1.0
H A:VAL256 3.8 33.1 1.0
CA A:GLU251 3.8 26.7 1.0
HG21 A:VAL256 3.8 38.7 1.0
CG2 A:VAL256 3.9 32.2 1.0
HB3 A:ASP253 4.0 34.2 1.0
N A:ALA258 4.1 27.2 1.0
HA A:ASP257 4.1 32.0 1.0
CA A:ASP253 4.1 28.3 1.0
HB3 A:ALA258 4.2 37.4 1.0
HA A:PRO254 4.2 38.4 1.0
N A:GLU251 4.2 28.8 1.0
HD3 A:ARG132 4.2 60.2 1.0
N A:THR252 4.2 25.5 1.0
CB A:ALA258 4.3 31.2 1.0
C A:THR252 4.4 29.3 1.0
N A:VAL256 4.5 27.6 1.0
HG22 A:VAL256 4.5 38.7 1.0
N A:PRO254 4.5 28.8 1.0
HH21 A:ARG132 4.5 95.2 1.0
CA A:VAL256 4.5 30.4 1.0
N A:ASP257 4.5 25.5 1.0
NH2 A:ARG132 4.6 79.3 1.0
CB A:ASP253 4.6 28.5 1.0
H A:THR252 4.6 30.6 1.0
CA A:ASP257 4.6 26.7 1.0
CZ A:ARG132 4.7 74.2 1.0
CA A:PRO254 4.7 32.0 1.0
CA A:THR252 4.8 28.5 1.0
HH22 A:ARG132 4.8 95.2 1.0
HA A:LEU250 4.8 28.9 1.0
CA A:ALA258 4.8 28.3 1.0
C A:ASP257 4.8 28.5 1.0
CA A:LEU250 4.8 24.1 1.0
CB A:VAL256 4.8 31.2 1.0
HB3 A:LEU250 4.8 34.1 1.0
HA A:THR252 4.8 34.2 1.0
NE A:ARG132 4.9 69.5 1.0
CD A:ARG132 5.0 50.2 1.0

Reference:

S.Mazurkewich, J.C.Navarro Poulsen, J.Larsbrink, L.Lo Leggio. The Wild Type Glucuronoyl Esterase OTCE15A From Opitutus Terrae in Complex with D-Glucuronate To Be Published.
Page generated: Tue Dec 15 13:01:20 2020

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